holy build box script

ablab · Jul 8, 2016 · 61e76c1 · 61e76c1
1 parent 64df403
commit 61e76c1
Showing 1 changed file with 26 additions and 0 deletions.
diff --git a/assembler/src/tools/spades_holybox_compile.sh b/assembler/src/tools/spades_holybox_compile.sh
@@ -0,0 +1,26 @@
+#!/bin/bash
+
+# Script for compiling SPAdes using holy build box
+# To compile spades run
+# docker run -t -i -v <path with algorithmic-biology repository>:/gitrep --rm phusion/holy-build-box-64:latest bash /gitrep/algorithmic-biology/assembler/src/tools/spades_holybox_compile.sh
+
+set -e
+source /hbb_exe/activate
+
+set -x
+
+yum install bzip2-devel
+
+cd /gitrep/algorithmic-biology/assembler
+./spades_compile.sh -DSPADES_STATIC_BUILD=1
+
+cd build_spades
+make package
+
+#ldd /gitrep/algorithmic-biology/assembler/bin/spades
+#ldd /gitrep/algorithmic-biology/assembler/bin/hammer
+#ldd /gitrep/algorithmic-biology/assembler/bin/bwa-spades
+#ldd /gitrep/algorithmic-biology/assembler/bin/corrector
+#ldd /gitrep/algorithmic-biology/assembler/bin/dipspades
+#ldd /gitrep/algorithmic-biology/assembler/bin/ionhammer
+#ldd /gitrep/algorithmic-biology/assembler/bin/scaffold_correction